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1 Metabolic networks ”Analyses and prediction of metabolic networks based on genetically modified organisms with gene specific knock-outs or genetically.

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Presentation on theme: "1 Metabolic networks ”Analyses and prediction of metabolic networks based on genetically modified organisms with gene specific knock-outs or genetically."— Presentation transcript:

1 1 Metabolic networks ”Analyses and prediction of metabolic networks based on genetically modified organisms with gene specific knock-outs or genetically controlled modifications of primary and secondary metabolism” –”Primary metabolism” - biochemical pathways that are in general common to all cells –”Secondary metabolism” - specialised pathways, often involved in defence Postdoc in bioinformatics/metabolic networks Start January 2004 Finn Drabløs, Sigurd Skogestad, Bjørn K. Alsberg, Mette Langaas, Svein Valla, Atle M. Bones

2 2 Networks everywhere... Regulatory and signalling networks –Event  signal  process –Trp  Trp repressor  Blocks Trp operon transcription Metabolic networks –Substrate  substrate  substrate  product –citrate  isocitrate   -ketoglutarate  succinyl CoA  succinate Interaction networks –A + B  AB –Cytochrome + subunit L + M + H  photosynthetic reaction centre Networks overlap and interact Systems biology

3 3 Research project Understand how processes are organised into networks, and how networks can be manipulated (metabolic engineering) Raw data from postdoc in biotechnology and other sources –Transcriptional profiling on up to 52.000 unique genes –LC-MS, GC-MS, HPLC –NMR Integration with other data sources –KEGG, LIGAND, Global Pathways DB, MDDB, Transfac, BIND, … Classification –Gene expression data –Effect/response data Metabolic modelling (the in silico cell)

4 4 Programme for bioinformatics Inter-faculty collaboration to co-ordinate bioinformatics at NTNU –DMF - Faculty of Medicine –NT - Faculty of Natural Sciences and Technology –IME - Faculty of Engineering Science and Technology Programme committee –Kjell Bratbergsengen (committee leader), Finn Drabløs (general leader), Arne Halaas, Atle Bones, Catharina Davies, Mette Langaas, Astrid Lægreid, Bjørn Alsberg, Erik Must (Fondsfinans), Per Magnus (Nasjonalt folkehelseinstitutt), Birgit Hafeld Borgen (co-ordinator w/FUGE, temporary appointment) Mandate (excerpt): “The main task for the committee will be to co- ordinate and stimulate the inter-faculty activity in bioinformatics at NTNU. Focus will be on education and research”

5 5 Programme for bioinformatics Supported by –NTNU “Strategi & omstilling” –Bioemit –IME & DMF Tools –Professor in bioinformatics “Svanhild og Arne Musts fond for medisinsk forskning”, DMF –Network for bioinformatics –Co-ordinate education –Co-ordinate applications –Meetings and seminars –“Marketing” of bioinformatics


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